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Table 10 The performances of various protein complex detection algorithms on PPI datasets using the MIPS gold standard

From: Integrating PPI datasets with the PPI data from biomedical literature for protein complex detection

  

Collins

Gavin

Krogan-core

Krogan-extended

BioGRID

Avg.Δ

C

O

A

C

H

Accuracy

0.4384

0.3706

0.3164

0.3168

0.4120

 
 

Accuracy(-0.6)

0.4325

0.3783

0.3391

0.3386

0.4164

 
 

Δ(-0.6)

-1.34%

2.08%

7.17%

6.88%

1.07%

3.17%

 

Accuracy(0)

    

0.4196

 
 

Δ(0)

    

1.84%

 
 

MMR

0.3390

0.3164

0.2630

0.2719

0.3221

 
 

MMR(-0.6)

0.3671

0.3368

0.3202

0.3372

0.3287

 
 

Δ(-0.6)

8.29%

6.45%

21.75%

24.02%

2.05%

12.51%

 

MMR(0)

    

0.3296

 
 

Δ(0)

    

2.33%

 

C

M

C

Accuracy

0.382

0.3329

0.2945

0.2956

0.3000

 
 

Accuracy(-0.6)

0.3922

0.3371

0.3209

0.317

0.3056

 
 

Δ(-0.6)

2.67%

1.26%

8.96%

7.24%

1.87%

4.4%

 

Accuracy(0)

    

0.3085

 
 

Δ(0)

    

2.83%

 
 

MMR

0.2593

0.2859

0.1821

0.2039

0.0680

 
 

MMR(-0.6)

0.2935

0.3118

0.2527

0.2752

0.0702

 
 

Δ(-0.6)

13.19%

9.06%

38.77%

34.97%

3.24%

19.85%

 

MMR(0)

    

0.0719

 
 

Δ(0)

    

5.74%

 

R

R

W

Accuracy

0.3382

0.3339

0.2886

0.2975

0.3409

 
 

Accuracy(-0.6)

0.3433

0.3387

0.3095

0.3139

0.3361

 
 

Δ(-0.6)

1.51%

1.44%

7.24%

5.51%

-1.41%

2.86%

 

Accuracy(0)

    

0.3447

 
 

Δ(0)

    

1.11%

 
 

MMR

0.3148

0.2959

0.2479

0.2549

0.2759

 
 

MMR(-0.6)

0.3198

0.3058

0.2854

0.2787

0.2527

 
 

Δ(-0.6)

1.59%

3.35%

15.13%

9.34%

-8.41%

4.2%

 

MMR(0)

    

0.2794

 
 

Δ(0)

    

1.27%

 
  1. MMR(-0.6) denotes the MMR value when with the threshold -0.6; Δ(-0.6) denotes the MMR improvement when with the threshold -0.6 over that on the original datasets. MMR(0) denotes the MMR value when with the threshold 0; Δ(0) denotes the MMR improvement when with the threshold 0 over that on the original datasets.